5be937a7fb
[Kernel] Slicing Batched Graphs ( #2965 )
...
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Update
* Add files via upload
* Add files via upload
* Add files via upload
* Add files via upload
* Update
* Update
* Add files via upload
* Add files via upload
* Update
* Lint
* Add files via upload
* Lint
* Update
* Update
* Update
* Update
* Update
* Lint Fix
* Lint
Co-authored-by: Ubuntu <ubuntu@ip-172-31-12-161.us-west-2.compute.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-06-10 12:07:44 +08:00
a7fe461c1c
[Doc] Single-machine Multi-GPU node classification tutorial ( #2976 )
...
* multi-GPU node classification tutorial
* Update 2_node_classification.py
* fixes
* elaborate a bit more
* address comments
* address comments
2021-06-08 10:28:02 +08:00
972a9f1323
[Doc] Re-organize the code for dgl.geometry, and expose it in the doc ( #2982 )
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* reorg and expose dgl.geometry
* fix lint
* fix test
* fix
2021-06-07 11:19:39 +08:00
895d6fff72
[Doc] changing of output dimension ( #2981 )
...
Co-authored-by: zhjwy9343 <6593865@qq.com >
2021-06-05 22:12:41 +08:00
b1628f2398
[Tutorial] Distributed node classification. ( #2969 )
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* add init version.
* fix build.
* fix format.
* fix.
* fix.
* fix format.
* update README.
* avoid running CI on distributed training tutorials.
* Update tutorials/dist/1_node_classification.py
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
* fix.
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-06-04 21:50:16 +08:00
6383e64937
[Doc] correct the matrix multiplication symbols ( #2961 )
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* correct the matrix multiplication symbols
* modified dimensionality of linear
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-06-03 08:51:23 +08:00
2ae190d690
[Doc] fix shape mismatch problem in user guide ( #2938 )
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Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-06-02 12:18:10 +08:00
09642d7c21
[Tutorial] Single Machine Multi-GPU Minibatch Graph Classification ( #2940 )
...
* Update
* Update
* Update tutorials/multi/1_graph_classification.py
Co-authored-by: Tong He <hetong007@gmail.com >
* Update
* Update
* Update
Co-authored-by: Ubuntu <ubuntu@ip-172-31-4-21.us-west-2.compute.internal >
Co-authored-by: Tong He <hetong007@gmail.com >
2021-05-31 18:36:34 +08:00
6e7f19f27b
[Distributed] add distributed in-degree and out-degree. ( #2918 )
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* add distributed in-degree and out-degree.
* update comments.
* fix a bug.
* add tests.
* add tests.
* fix a bug.
* fix docstring.
* update doc.
* fix
* fix.
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com >
Co-authored-by: xiang song(charlie.song) <classicxsong@gmail.com >
2021-05-18 19:46:09 +08:00
657c220de7
[Feature] Python interface for adjacency matrix summation and multiplication ( #2893 )
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* test commit
* fixes
* oops
* add docs
* lint
* why does it say I have a trailing whitespace
* oh ok
* fixes
* why there's an invalid argument error
* address comments
* fix
* address comments
2021-05-17 19:47:02 +08:00
b03077b60d
[NN] GCNII model added < https://arxiv.org/pdf/2007.02133.pdf > ( #2874 )
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* Auto stash before rebase of "origin/pytorch-nn-working"
GCNII model added
* linting
* linting
* lint
* Frequency Adaptive gcn init comit
* Revert "Frequency Adaptive gcn init comit"
This reverts commit 86a80586ac0040497c1edfa0e80df719992dcc4a.
* Update python/dgl/nn/pytorch/conv/gcn2conv.py
modified docstring
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
* added beta formula and changed param name
* fix docstring
* lint
* white space lint
* update docstring
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
* docstring formula update
* added gcn2
* added GCN2Conv
* Update nn.pytorch.rst
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-05-17 10:25:59 +08:00
caa6d6072c
[Feature] Replacing thread_wrapped_func with minimal mp.Process wrapper ( #2905 )
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* standardizing thread_wrapped_func
* lints
* Update __init__.py
2021-05-14 11:34:49 +08:00
a90296aa9c
fix. ( #2907 )
...
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com >
2021-05-13 16:55:31 +08:00
c18f957d0e
[Model] add implementation of twirls ( #2770 )
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* add implementation of twirls
* format the code
* fix some format error, and ignore others
* fix format errors
* fix format errors
* expose unfolding & attention
* Update nn.pytorch.rst
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-05-11 09:58:48 +08:00
5498cf051e
[Doc]Fix examples on negative graph sampler ( #2863 )
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* Fix examples on negative graph sampler
In heterogeneous graph, the old example may build a negative graph without edges. In dgl.dataloading.dataloader line637, it shows the key of neg_edges dict should be item in g.canonical_etypes.
* poke ci
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-05-06 21:34:31 +08:00
975eb8fc5d
[Distributed] Distributed node embedding and sparse optimizer ( #2733 )
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* Draft for sparse emb
* add some notes
* Fix
* Add sparse optim for dist pytorch
* Update test
* Fix
* upd
* upd
* Fix
* Fix
* Fix bug
* add transductive exmpale
* Fix example
* Some fix
* Upd
* Fix lint
* lint
* lint
* lint
* upd
* Fix lint
* lint
* upd
* remove dead import
* update
* lint
* update unitest
* update example
* Add adam optimizer
* Add unitest and update data
* upd
* upd
* upd
* Fix docstring and fix some bug in example code
* Update rgcn readme
Co-authored-by: Ubuntu <ubuntu@ip-172-31-57-25.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-24-210.ec2.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-66.ec2.internal >
2021-05-03 08:37:40 +08:00
45ec21b033
[Distributed] fix docs for distributed training. ( #2840 )
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* update distributed training doc.
* explain data split.
* fix message passing.
* id mapping.
* fix.
* test data reshuffling.
* fix a bug.
* fix test.
* Revert "fix test."
This reverts commit 907f1dd88994894db94ffcd77b5995279f76b489.
* Revert "fix a bug."
This reverts commit ff0a4d893bbe4911a75ecb04bcbd9bc65315166b.
* Revert "test data reshuffling."
This reverts commit 99bb2f6405de67fc73652220b02e7184461c3e5e.
Co-authored-by: Zheng <dzzhen@3c22fba32af5.ant.amazon.com >
2021-04-29 14:38:41 +08:00
e36c5db614
[Distributed] Simplify distributed API ( #2775 )
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* remove num_workers.
* remove num_workers.
* remove num_workers.
* remove num-servers.
* update error message.
* update docstring.
* fix docs.
* fix tests.
* fix test.
* fix.
* print messages in test.
* fix.
* fix test.
* fix.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
2021-03-29 19:19:23 -07:00
1789972c4b
[Bugfix] add default value for BlockSampler ( #2771 )
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* [Bugfix] add default value for BlockSampler
* [Doc] modify user_guide description about MultiLayerDropoutSample
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-03-22 14:02:27 +08:00
17f863569e
fix ( #2744 )
2021-03-21 22:38:55 -07:00
a1f59c3b68
[Feature] QM9Edge Dataset Support ( #2704 )
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* [Feature] Support QM9Edge Datset
* Update qm9_edge.py
* disable tqdm
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* Update qm9_edge.py
* remove preprocessing part
* add comparisons in qm9.py
* [docs] add qm9edge dataset
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2021-03-09 14:51:21 +08:00
99751d4960
[Doc] Rename block to message flow graph ( #2702 )
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* rename block to mfg
* revert
* rename
2021-02-25 18:26:19 +08:00
71d53d9eef
add thumbnails for tutorials ( #2695 )
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Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-02-23 20:33:35 +08:00
48a1794f85
[Doc] Fix the user guide for distributed partitioning. ( #2684 )
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* fix doc.
* explain the schema file.
* fix.
2021-02-22 18:59:15 -08:00
8a07ab7737
[Doc] Tutorials re-organization ( #2683 )
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* reorg
* change titles
* rm some stale API doc; minor fix
* fix docs
* add warning
* rm new-tutorial run in ci
* lint
2021-02-20 17:42:45 +08:00
0fc649523b
[Doc] Distributed heterogeneous graph training ( #2654 )
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* update DistGraph docstrings.
* add user guide.
* add doc string.
* fix.
* fix.
* fix.
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-02-19 10:48:05 -08:00
453d358d2c
[Doc] Fix docs for sparse optimizer ( #2680 )
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Co-authored-by: Ubuntu <ubuntu@ip-172-31-56-220.ec2.internal >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-02-19 14:07:35 +08:00
9e04a52abd
[Doc] Reorganize tutorial ( #2678 )
2021-02-19 13:49:13 +08:00
e4ff484494
[Distributed] Distributed METIS partition ( #2576 )
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* add convert.
* fix.
* add write_mag.
* fix convert_partition.py
* write data.
* use pyarrow to read.
* update write_mag.py
* fix convert_partition.py.
* load node/edge features when necessary.
* reshuffle nodes.
* write mag correctly.
* fix a bug: inner nodes in a partition might be empty.
* fix bugs.
* add verify code.
* insert reverse edges.
* fix a bug.
* add get node/edge data.
* add instructions.
* remove unnecessary argument.
* update distributed preprocessing.
* fix readme.
* fix.
* fix.
* fix.
* fix readme.
* fix doc.
* fix.
* update readme
* update doc.
* update readme.
Co-authored-by: Ubuntu <ubuntu@ip-172-31-9-132.us-west-1.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-2-202.us-west-1.compute.internal >
2021-02-08 17:19:18 -08:00
8ccb8206bf
[Doc] Update docs to motivate the use of set_batch_num_nodes and set_batch_num_edges ( #2630 )
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* fix doc
* update docstring for transformation on batch graph
* update cn guide
* fix format
* update rst
2021-02-08 14:43:24 +08:00
98ac391ed9
[Doc] Large graph training tutorials ( #2595 )
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* large graph training tutorials
* add full graph link prediction update
* fix
* fix
* fix
* addressed comments
2021-02-07 17:55:49 +08:00
3ca52b1e59
[Fix] Various Fix after Bug Bash ( #2620 )
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* update
* Misc fix
* Update
2021-02-05 17:34:16 +08:00
b1840f49fa
[Dataset] Change the Data Type of the Node Features in GINDataset/TUDataset from Float64 to Float32 ( #2592 )
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* Update
* Update
* Update
* update
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Tong He <hetong007@gmail.com >
2021-02-03 21:00:45 +08:00
3a19bbc508
fix doc ( #2604 )
2021-02-02 11:04:43 +08:00
4ca706e1b4
[Doc] Update doc of dgl.function ( #2585 )
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* update doc of dgl.function
* small fix
2021-01-28 16:32:18 +08:00
7bab1365e2
[feature] Supporting half precision floating data type (fp16). ( #2552 )
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* add tvm as submodule
* compilation is ok but calling fails
* can call now
* pack multiple modules, change names
* upd
* upd
* upd
* fix cmake
* upd
* upd
* upd
* upd
* fix
* relative path
* upd
* upd
* upd
* singleton
* upd
* trigger
* fix
* upd
* count reducible
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* upd
* only keep related files
* upd
* upd
* upd
* upd
* lint
* lint
* lint
* lint
* pylint
* upd
* upd
* compilation
* fix
* upd
* upd
* upd
* upd
* upd
* upd
* upd doc
* refactor
* fix
* upd number
Co-authored-by: Zhi Lin <linzhilynn@gmail.com >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-42-78.us-east-2.compute.internal >
Co-authored-by: Ubuntu <ubuntu@ip-172-31-21-156.us-east-2.compute.internal >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-01-28 11:21:58 +08:00
a7e941c379
[Feature] Add support for sparse embedding ( #2451 )
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* Add sparse embedding for dgl and update rgcn example
* upd
* Fix
* Revert "Fix"
This reverts commit 4da87cdfb8b8c3506b7fc7376cd2385ba8045c2a.
* Fix
* upd
* upd
* Fix
* Add unitest and update impl
* fix
* Clean up rgcn example code
* upd
* upd
* update
* Fix
* update score
* sparse for sage
* remove model sparse
* upd
* upd
* remove global norm
* revert delete model_sparse.py
* update according to comments
* Fix doc
* upd
* Fix test
* upd
* lint
* lint
* lint
* upd
* upd
* clean up
Co-authored-by: Ubuntu <ubuntu@ip-172-31-56-220.ec2.internal >
2021-01-28 00:26:49 +08:00
0855d25501
[NN] Support scalar edge weight for GraphConv, SAGEConv and GINConv ( #2557 )
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* add edge weight in forward
* fix lint
* fix
* fix
* address comments
* add utils
* add util to normalize in gcn way
* fix lint
* add unittest
* fix lint
* fix docstring
* fix docstring
* address comments
* improve notation consistence
* use preferred fn
2021-01-26 23:34:12 +08:00
6c23fba8fa
[Doc][Org] move edge_softmax to functional ( #2442 )
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* move edge_softmax to functional
* change examples
* fixes
* revert
* fix
* fix
* remove
* fix
* test
* add init
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-01-26 12:46:37 +08:00
2288098ba6
[Feature] Converting a block to a graph and allow block construction ( #2555 )
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* first commit
* more commit
* fix and docstring
* add to api reference
* address comments
* Update convert.py
2021-01-24 12:44:54 +08:00
2c6d071617
[Feature] QM9 Dataset Support ( #2521 )
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* [Model] MixHop for Node Classification task
* [docs] update
* [docs] update
* [fix] remove seed option
* [fix] update readme
* [feature] support qm9 dataset
* [style] update
* [docs] fix the details
* [fix] indexing only support int
* [style] update
* [fix] multiple backends support
* [docs] add qm9
* [fix] Z type: float32 -> int32
* [fix] Z type: int32 -> long
* [docs] add ref
* [docs] fix
* [docs] update
* [docs] update
* [fix] test eval
* [docs] fix example
Co-authored-by: xnuohz@126.com <ubuntu@ip-172-31-44-184.us-east-2.compute.internal >
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
2021-01-21 01:33:30 +08:00
917a755291
[Fix] fix version check ( #2544 )
2021-01-19 19:35:43 +08:00
a6ec8480ef
[Doc] Update FAQ ( #2536 )
2021-01-14 14:26:02 +08:00
1db7588739
fix. ( #2534 )
...
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-01-14 14:23:36 +08:00
c448e61b55
[Doc] CN User Guide Chapter 7 ( #2481 )
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* [Doc] Add Chapter 7
* [Doc] Add CN part 7, 7.1, 7.2, and 7.3
* [Doc] Add CN part 7, 7.1, 7.2, and 7.3
* [Doc] 1st round copyediting, 7, 7.1, 7.2, and 7.3, removing EN parts.
* [Doc] 2nd round copyediting.
* [Doc] 3rd round copyediting.
* [Doc] Copyedit with reviewers' comments.
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
2021-01-13 19:28:20 +08:00
31f65f036a
[Doc] user guide CN chapter 6 ( #2452 )
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* [Doc] Add 1st CN in chapter 6
* [Doc] Add 1st CN in chapter 6
* [Doc] Add 1st CN in chapter 6.1
* [Doc] Add 1st CN in chapter 6.1
* [Doc] Add 1st CN in chapter 6.2
* [Doc] Add CN in chapter 6.2
* [Doc] Add CN in chapter 6.3
* [Doc] Fix a code bug in chapter 6.3
* [Doc] Add CN in chapter 6.4, 6.5, and 6.6.
* [Doc] Add CN in chapter 6.4, 6.5, and 6.6，then remove EN parts.
* [Doc] revised 6.4, 6.5, and 6.6.
* [Doc] 2nd round of copyediting.
* Delete syn1.bin
Remove this unrelated file to this branch
* [Doc] Update guide_cn index.rst.
* [Doc] Update guide_cn index.rst.
* [Doc] Update guide_cn index.rst.
* [Doc] Update guide_cn index.rst.
* [Doc] Add chapter 7 in index page
* [Doc] edit chapter 6 in PR
* [Doc] edit chapter 6 in PR
* [Doc] Copyediting with Murphy and Minjie's comments.
* [Doc] Fix doc line in the previous chapters.
Co-authored-by: Jinjing Zhou <VoVAllen@users.noreply.github.com >
Co-authored-by: Mufei Li <mufeili1996@gmail.com >
Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com >
2021-01-13 17:12:33 +08:00
a9f8f2589c
[Doc] Update GraphDataLoader in our docs ( #2504 )
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* update graphdataloader in docs
* fix
* update examples
* fix sagpool
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com >
2021-01-11 13:11:19 +08:00
e018939729
[Tutorial] New tutorials for small graphs ( #2482 )
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* new tutorials for small graphs
* address changes and use GraphDataLoader
* fix and add data
* fix load_data
* style fixes
* Update 5_graph_classification.py
2021-01-10 22:24:21 +08:00
e2e524df41
[Feature] Add GraphDataLoader implementation ( #2496 )
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* add graph dataloader
* add to doc
* fix
* fix
* fix docstring
* update according to torch default_collate
* add unittest
* fix
* fix lint
* fix
2021-01-07 13:38:21 +08:00
fa5f4d6aa7
[Doc] Hotfix on docstring of set_batch_num_edges ( #2498 )
2021-01-06 21:45:04 +08:00
Mufei Li